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Monday, May 8, 2017

phytools already has an internal tree plotting function that uses dotted lines
to connect the tips of non-ultrametric trees to aligned tip labels. This
function can be seen, for instance, in the phytools method
plot.cophylo (e.g.,
here).

However, it is also easy to script essentially the same functionality using
plotTree or plotSimmap internally. For example:

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About this blog

This web-log chronicles the development of new tools for phylogenetic analyses in the phytools R package. Unless you a reading a very recent page of the blog, I recommend that you install the latest CRAN version of phytools (or latest beta release) before attempting to replicate any of the analyses of this site. That is because the linked functions may be archived, and very likely have been replaced by newer versions.